Andrew W. Dowsey

Phoenix Yu, Tilo Burghardt, Andrew W Dowsey et al.

Holstein-Friesian detection and re-identification (Re-ID) methods capture individuals well when targets are spatially separate. However, existing approaches, including YOLO-based species detection, break down when cows group closely together. This is particularly prevalent for species which have outline-breaking coat patterns. To boost both effectiveness and transferability in this setting, we propose a new detect-segment-identify pipeline that leverages the Open-Vocabulary Weight-free Localisation and the Segment Anything models as pre-processing stages alongside Re-ID networks. To evaluate our approach, we publish a collection of nine days CCTV data filmed on a working dairy farm. Our methodology overcomes detection breakdown in dense animal groupings, resulting in a 98.93% accuracy. This significantly outperforms current oriented bounding box-driven, as well as SAM species detection baselines with accuracy improvements of 47.52% and 27.13%, respectively. We show that unsupervised contrastive learning can build on this to yield 94.82% Re-ID accuracy on our test data. Our work demonstrates that Re-ID in crowded scenarios is both practical as well as reliable in working farm settings with no manual intervention. Code and dataset are provided for reproducibility.

Asheesh Sharma, Lucy Randewich, William Andrew et al.

This paper proposes and evaluates, for the first time, a top-down (dorsal view), depth-only deep learning system for accurately identifying individual cattle and provides associated code, datasets, and training weights for immediate reproducibility. An increase in herd size skews the cow-to-human ratio at the farm and makes the manual monitoring of individuals more challenging. Therefore, real-time cattle identification is essential for the farms and a crucial step towards precision livestock farming. Underpinned by our previous work, this paper introduces a deep-metric learning method for cattle identification using depth data from an off-the-shelf 3D camera. The method relies on CNN and MLP backbones that learn well-generalised embedding spaces from the body shape to differentiate individuals -- requiring neither species-specific coat patterns nor close-up muzzle prints for operation. The network embeddings are clustered using a simple algorithm such as $k$-NN for highly accurate identification, thus eliminating the need to retrain the network for enrolling new individuals. We evaluate two backbone architectures, ResNet, as previously used to identify Holstein Friesians using RGB images, and PointNet, which is specialised to operate on 3D point clouds. We also present CowDepth2023, a new dataset containing 21,490 synchronised colour-depth image pairs of 99 cows, to evaluate the backbones. Both ResNet and PointNet architectures, which consume depth maps and point clouds, respectively, led to high accuracy that is on par with the coat pattern-based backbone.

Phoenix Yu, Tilo Burghardt, Andrew W Dowsey et al.

We present MultiCamCows2024, a farm-scale image dataset filmed across multiple cameras for the biometric identification of individual Holstein-Friesian cattle exploiting their unique black and white coat-patterns. Captured by three ceiling-mounted visual sensors covering adjacent barn areas over seven days on a working dairy farm, the dataset comprises 101,329 images of 90 cows, plus underlying original CCTV footage. The dataset is provided with full computer vision recognition baselines, that is both a supervised and self-supervised learning framework for individual cow identification trained on cattle tracklets. We report a performance above 96% single image identification accuracy from the dataset and demonstrate that combining data from multiple cameras during learning enhances self-supervised identification. We show that our framework enables automatic cattle identification, barring only the simple human verification of tracklet integrity during data collection. Crucially, our study highlights that multi-camera, supervised and self-supervised components in tandem not only deliver highly accurate individual cow identification, but also achieve this efficiently with no labelling of cattle identities by humans. We argue that this improvement in efficacy has practical implications for livestock management, behaviour analysis, and agricultural monitoring. For reproducibility and practical ease of use, we publish all key software and code including re-identification components and the species detector with this paper, available at https://tinyurl.com/MultiCamCows2024.

Huimin Liu, Jing Gao, Daria Baran et al.

Cattle behaviour is a crucial indicator of an individual animal health, productivity and overall well-being. Video-based monitoring, combined with deep learning techniques, has become a mainstream approach in animal biometrics, and it can offer high accuracy in some behaviour recognition tasks. We present Cattle-CLIP, a multimodal deep learning framework for cattle behaviour recognition, using semantic cues to improve the performance of video-based visual feature recognition. It is adapted from the large-scale image-language model CLIP by adding a temporal integration module. To address the domain gap between web data used for the pre-trained model and real-world cattle surveillance footage, we introduce tailored data augmentation strategies and specialised text prompts. Cattle-CLIP is evaluated under both fully-supervised and few-shot learning scenarios, with a particular focus on data-scarce behaviour recognition - an important yet under-explored goal in livestock monitoring. To evaluate the proposed method, we release the CattleBehaviours6 dataset, which comprises six types of indoor behaviours: feeding, drinking, standing-self-grooming, standing-ruminating, lying-self-grooming and lying-ruminating. The dataset consists of 1905 clips collected from our John Oldacre Centre dairy farm research platform housing 200 Holstein-Friesian cows. Experiments show that Cattle-CLIP achieves 96.1% overall accuracy across six behaviours in a supervised setting, with nearly 100% recall for feeding, drinking and standing-ruminating behaviours, and demonstrates robust generalisation with limited data in few-shot scenarios, highlighting the potential of multimodal learning in agricultural and animal behaviour analysis.

Kumail Abbas, Zeeshan Afzal, Aqeel Raza et al.

Activity and behaviour correlate with dairy cow health and welfare, making continual and accurate monitoring crucial for disease identification and farm productivity. Manual observation and frequent assessments are laborious and inconsistent for activity monitoring. In this study, we developed a unique multi-camera, real-time tracking system for indoor-housed Holstein Friesian dairy cows. This technology uses cutting-edge computer vision techniques, including instance segmentation and tracking algorithms to monitor cow activity seamlessly and accurately. An integrated top-down barn panorama was created by geometrically aligning six camera feeds using homographic transformations. The detection phase used a refined YOLO11-m model trained on an overhead cow dataset, obtaining high accuracy (mAP\@0.50 = 0.97, F1 = 0.95). SAMURAI, an upgraded Segment Anything Model 2.1, generated pixel-precise cow masks for instance segmentation utilizing zero-shot learning and motion-aware memory. Even with occlusion and fluctuating posture, a motion-aware Linear Kalman filter and IoU-based data association reliably identified cows over time for object tracking. The proposed system significantly outperformed Deep SORT Realtime. Multi-Object Tracking Accuracy (MOTA) was 98.7% and 99.3% in two benchmark video sequences, with IDF1 scores above 99% and near-zero identity switches. This unified multi-camera system can track dairy cows in complex interior surroundings in real time, according to our data. The system reduces redundant detections across overlapping cameras, maintains continuity as cows move between viewpoints, with the aim of improving early sickness prediction through activity quantification and behavioural classification.

Yujie Dai, Brian Sullivan, Axel Montout et al.

The use of machine learning and AI on electronic health records (EHRs) holds substantial potential for clinical insight. However, this approach faces challenges due to data heterogeneity, sparsity, temporal misalignment, and limited labeled outcomes. In this context, we leverage a linked EHR dataset of approximately one million de-identified individuals from Bristol, North Somerset, and South Gloucestershire, UK, to characterize urinary tract infections (UTIs). We implemented a data pre-processing and curation pipeline that transforms the raw EHR data into a structured format suitable for developing predictive models focused on data fairness, accountability and transparency. Given the limited availability and biases of ground truth UTI outcomes, we introduce a UTI risk estimation framework informed by clinical expertise to estimate UTI risk across individual patient timelines. Pairwise XGBoost models are trained using this framework to differentiate UTI risk categories with explainable AI techniques applied to identify key predictors and support interpretability. Our findings reveal differences in clinical and demographic predictors across risk groups. While this study highlights the potential of AI-driven insights to support UTI clinical decision-making, further investigation of patient sub-strata and extensive validation are needed to ensure robustness and applicability in clinical practice.

Jing Gao, Tilo Burghardt, William Andrew et al.

In this paper we publish the largest identity-annotated Holstein-Friesian cattle dataset Cows2021 and a first self-supervision framework for video identification of individual animals. The dataset contains 10,402 RGB images with labels for localisation and identity as well as 301 videos from the same herd. The data shows top-down in-barn imagery, which captures the breed's individually distinctive black and white coat pattern. Motivated by the labelling burden involved in constructing visual cattle identification systems, we propose exploiting the temporal coat pattern appearance across videos as a self-supervision signal for animal identity learning. Using an individual-agnostic cattle detector that yields oriented bounding-boxes, rotation-normalised tracklets of individuals are formed via tracking-by-detection and enriched via augmentations. This produces a `positive' sample set per tracklet, which is paired against a `negative' set sampled from random cattle of other videos. Frame-triplet contrastive learning is then employed to construct a metric latent space. The fitting of a Gaussian Mixture Model to this space yields a cattle identity classifier. Results show an accuracy of Top-1 57.0% and Top-4: 76.9% and an Adjusted Rand Index: 0.53 compared to the ground truth. Whilst supervised training surpasses this benchmark by a large margin, we conclude that self-supervision can nevertheless play a highly effective role in speeding up labelling efforts when initially constructing supervision information. We provide all data and full source code alongside an analysis and evaluation of the system.

William Andrew, Jing Gao, Siobhan Mullan et al.

Holstein-Friesian cattle exhibit individually-characteristic black and white coat patterns visually akin to those arising from Turing's reaction-diffusion systems. This work takes advantage of these natural markings in order to automate visual detection and biometric identification of individual Holstein-Friesians via convolutional neural networks and deep metric learning techniques. Existing approaches rely on markings, tags or wearables with a variety of maintenance requirements, whereas we present a totally hands-off method for the automated detection, localisation, and identification of individual animals from overhead imaging in an open herd setting, i.e. where new additions to the herd are identified without re-training. We propose the use of SoftMax-based reciprocal triplet loss to address the identification problem and evaluate the techniques in detail against fixed herd paradigms. We find that deep metric learning systems show strong performance even when many cattle unseen during system training are to be identified and re-identified -- achieving 93.8% accuracy when trained on just half of the population. This work paves the way for facilitating the non-intrusive monitoring of cattle applicable to precision farming and surveillance for automated productivity, health and welfare monitoring, and to veterinary research such as behavioural analysis, disease outbreak tracing, and more. Key parts of the source code, network weights and datasets are available publicly.